GREMLIN Database
MRE11 - DNA double-strand break repair protein Mre11
UniProt: Q97WG9 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 381 (339)
Sequences: 4067 (3248)
Seq/√Len: 176.4

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
46_I154_L5.1361.00
40_E239_S4.1131.00
225_G240_T3.8851.00
36_I226_A3.7621.00
5_L42_V3.4721.00
42_V228_L3.3141.00
3_Q230_D3.2621.00
40_E241_I3.2571.00
223_G242_N3.1451.00
4_I44_V3.1321.00
33_L208_P3.0401.00
37_A45_I3.0031.00
80_L123_V2.7891.00
31_S71_R2.7751.00
228_L241_I2.7671.00
7_I47_H2.7281.00
35_D39_K2.6141.00
227_Y238_L2.6111.00
36_I241_I2.5571.00
36_I40_E2.5051.00
65_A69_L2.4451.00
8_S205_A2.4361.00
203_A227_Y2.4331.00
122_E149_S2.3451.00
230_D239_S2.3141.00
252_T285_I2.2911.00
7_I10_T2.2551.00
38_I75_V2.1771.00
48_S154_L2.1761.00
40_E228_L2.1481.00
4_I229_I2.1181.00
250_V283_H2.0951.00
193_R200_S2.0731.00
6_H184_A2.0201.00
250_V285_I1.9961.00
30_F68_I1.9881.00
117_I122_E1.9841.00
44_V80_L1.9651.00
44_V123_V1.9201.00
230_D237_I1.9151.00
46_I123_V1.8801.00
252_T287_E1.8481.00
249_K280_P1.8401.00
231_F236_P1.8341.00
31_S68_I1.8341.00
153_L180_F1.8251.00
162_I188_I1.8041.00
191_R227_Y1.7691.00
216_I250_V1.7541.00
333_G336_K1.7231.00
37_A77_I1.7121.00
7_I33_L1.7081.00
123_V152_I1.6881.00
27_Y64_M1.6741.00
349_S352_E1.6691.00
12_L65_A1.6601.00
213_E283_H1.6591.00
35_D71_R1.6541.00
25_D246_R1.6461.00
22_R25_D1.6411.00
6_H182_Y1.6321.00
29_I33_L1.6121.00
37_A42_V1.6001.00
227_Y240_T1.5981.00
226_A243_I1.5981.00
10_T47_H1.5931.00
29_I208_P1.5921.00
120_G150_R1.5821.00
153_L183_Y1.5791.00
5_L37_A1.5541.00
31_S35_D1.5481.00
8_S48_S1.5451.00
37_A72_L1.5421.00
5_L228_L1.5131.00
33_L226_A1.5121.00
122_E151_S1.4941.00
191_R225_G1.4921.00
24_K28_D1.4871.00
5_L226_A1.4841.00
357_L361_K1.4581.00
299_E302_P1.4551.00
80_L125_G1.4541.00
350_E353_A1.4521.00
3_Q40_E1.4511.00
51_L81_S1.4491.00
183_Y202_I1.4481.00
254_N257_N1.4451.00
138_V141_L1.4411.00
121_I152_I1.4371.00
354_N358_Q1.4091.00
38_I71_R1.3981.00
64_M68_I1.3951.00
123_V154_L1.3921.00
51_L65_A1.3871.00
16_Q22_R1.3831.00
210_I247_P1.3761.00
203_A238_L1.3731.00
14_K211_M1.3581.00
2_V230_D1.3341.00
356_I360_I1.3251.00
229_I238_L1.3231.00
330_R333_G1.3191.00
115_P118_I1.3071.00
25_D281_I1.3051.00
191_R240_T1.3041.00
35_D38_I1.2881.00
82_I154_L1.2861.00
294_D298_K1.2801.00
150_R231_F1.2771.00
135_S138_V1.2701.00
124_Y180_F1.2661.00
232_S235_L1.2561.00
300_L303_L1.2511.00
32_Q35_D1.2501.00
180_F183_Y1.2411.00
5_L36_I1.2351.00
26_I211_M1.2251.00
252_T313_Y1.2221.00
146_P149_S1.2211.00
36_I39_K1.2151.00
71_R74_D1.1991.00
124_Y151_S1.1981.00
58_T61_A1.1891.00
29_I243_I1.1791.00
10_T51_L1.1701.00
50_D86_H1.1661.00
207_S211_M1.1611.00
47_H79_F1.1521.00
28_D245_V1.1371.00
336_K339_I1.1321.00
358_Q362_N1.1241.00
350_E354_N1.1211.00
28_D31_S1.1201.00
14_K53_D1.1121.00
334_L339_I1.1051.00
34_V68_I1.1031.00
69_L79_F1.0991.00
27_Y31_S1.0961.00
247_P280_P1.0951.00
348_F352_E1.0901.00
174_G177_P1.0831.00
170_Q173_L1.0821.00
337_I340_E1.0791.00
105_D108_K1.0751.00
6_H185_L1.0741.00
29_I209_D1.0601.00
135_S141_L1.0501.00
38_I77_I1.0421.00
251_V284_I1.0370.99
121_I150_R1.0370.99
191_R203_A1.0360.99
44_V152_I1.0350.99
352_E356_I1.0320.99
117_I120_G1.0300.99
254_N287_E1.0270.99
32_Q244_T1.0270.99
297_Y301_L1.0260.99
34_V72_L1.0230.99
339_I342_L1.0200.99
349_S353_A1.0090.99
32_Q243_I1.0040.99
334_L338_I1.0010.99
53_D211_M1.0010.99
97_P101_L0.9930.99
190_T222_F0.9890.99
27_Y67_K0.9840.99
353_A357_L0.9770.99
4_I46_I0.9770.99
337_I341_Y0.9730.99
229_I236_P0.9710.99
78_P107_I0.9690.99
207_S224_K0.9690.99
165_Y168_S0.9670.99
137_L140_A0.9670.99
348_F356_I0.9640.99
168_S171_M0.9620.99
46_I152_I0.9590.99
331_D334_L0.9590.99
193_R203_A0.9580.99
151_S181_G0.9540.99
352_E360_I0.9400.99
194_L198_D0.9400.99
125_G154_L0.9390.99
115_P122_E0.9380.99
168_S172_E0.9340.99
68_I71_R0.9290.99
348_F360_I0.9280.99
167_G171_M0.9270.99
86_H189_H0.9230.99
23_E60_N0.9200.99
25_D209_D0.9190.99
142_S180_F0.9190.99
335_D342_L0.9180.99
159_V194_L0.9170.99
253_I257_N0.9130.99
142_S179_G0.9110.99
50_D85_D0.9100.99
3_Q228_L0.9080.99
46_I229_I0.9050.99
83_P127_P0.8990.99
332_K340_E0.8950.98
296_L302_P0.8940.98
65_A81_S0.8910.98
58_T62_L0.8890.98
13_G61_A0.8870.98
283_H309_Y0.8850.98
66_I99_N0.8850.98
299_E303_L0.8800.98
339_I343_T0.8770.98
213_E248_Q0.8760.98
182_Y203_A0.8720.98
94_Y97_P0.8690.98
296_L299_E0.8670.98
228_L239_S0.8660.98
6_H205_A0.8620.98
155_L185_L0.8620.98
50_D189_H0.8600.98
108_K111_N0.8580.98
285_I311_R0.8500.98
111_N114_K0.8490.98
255_T292_R0.8490.98
46_I184_A0.8470.98
34_V75_V0.8460.98
38_I74_D0.8430.98
173_L202_I0.8390.98
359_M362_N0.8360.98
72_L79_F0.8340.98
109_I125_G0.8300.98
285_I313_Y0.8280.98
298_K301_L0.8270.97
335_D339_I0.8230.97
330_R339_I0.8170.97
44_V121_I0.8160.97
210_I224_K0.8130.97
156_H187_H0.8120.97
83_P89_P0.8090.97
45_I79_F0.8070.97
4_I121_I0.8060.97
16_Q248_Q0.8030.97
355_L360_I0.8010.97
226_A241_I0.7930.97
70_K74_D0.7920.97
52_F65_A0.7820.96
216_I222_F0.7820.96
48_S205_A0.7810.96
13_G57_P0.7790.96
152_I229_I0.7780.96
357_L362_N0.7780.96
126_I137_L0.7740.96
83_P110_L0.7730.96
104_L107_I0.7710.96
81_S108_K0.7670.96
184_A203_A0.7620.96
130_P133_S0.7610.96
42_V45_I0.7590.96
337_I342_L0.7550.96
39_K241_I0.7550.96
33_L37_A0.7540.96
343_T347_K0.7530.96
332_K335_D0.7530.96
7_I208_P0.7510.96
358_Q361_K0.7480.95
126_I155_L0.7450.95
53_D224_K0.7440.95
86_H156_H0.7440.95
307_A310_Y0.7420.95
65_A94_Y0.7360.95
11_H189_H0.7340.95
63_V102_S0.7340.95
340_E343_T0.7300.95
348_F353_A0.7300.95
339_I353_A0.7280.95
135_S139_S0.7270.95
333_G341_Y0.7270.95
88_T131_T0.7260.95
27_Y71_R0.7260.95
150_R181_G0.7220.95
336_K353_A0.7210.94
297_Y300_L0.7210.94
36_I228_L0.7200.94
48_S82_I0.7180.94
59_T62_L0.7170.94
81_S106_L0.7160.94
325_S328_L0.7150.94
332_K336_K0.7130.94
73_K106_L0.7110.94
275_S278_N0.7110.94
32_Q245_V0.7110.94
5_L45_I0.7100.94
176_L183_Y0.7090.94
217_E223_G0.7070.94
29_I244_T0.7060.94
69_L106_L0.7050.94
104_L108_K0.7050.94
48_S69_L0.7030.94
12_L30_F0.7010.94
333_G342_L0.6980.93
85_D189_H0.6980.93
347_K352_E0.6970.93
334_L342_L0.6960.93
25_D28_D0.6950.93
208_P243_I0.6940.93
80_L116_Y0.6900.93
115_P119_K0.6900.93
145_R151_S0.6860.93
4_I231_F0.6850.93
352_E355_L0.6840.93
10_T30_F0.6820.93
297_Y307_A0.6810.93
208_P226_A0.6810.93
328_L332_K0.6800.93
330_R334_L0.6790.93
10_T208_P0.6790.93
71_R75_V0.6770.92
355_L358_Q0.6750.92
340_E347_K0.6740.92
12_L58_T0.6740.92
23_E26_I0.6690.92
261_D273_N0.6680.92
136_I139_S0.6680.92
167_G172_E0.6650.92
33_L45_I0.6630.92
26_I209_D0.6630.92
30_F34_V0.6630.92
101_L108_K0.6620.92
330_R335_D0.6610.92
277_N280_P0.6600.91
22_R209_D0.6590.91
333_G337_I0.6580.91
322_D326_Y0.6570.91
43_D119_K0.6560.91
329_P336_K0.6560.91
346_E349_S0.6560.91
100_I104_L0.6560.91
331_D339_I0.6530.91
52_F97_P0.6520.91
115_P124_Y0.6520.91
43_D230_D0.6520.91
86_H187_H0.6500.91
255_T258_I0.6490.91
127_P204_I0.6480.91
52_F62_L0.6480.91
309_Y313_Y0.6470.91
2_V231_F0.6470.91
169_W172_E0.6440.90
256_K260_K0.6440.90
135_S140_A0.6420.90
322_D325_S0.6420.90
329_P337_I0.6360.90
347_K358_Q0.6350.90
349_S354_N0.6340.90
310_Y314_K0.6340.90
22_R246_R0.6320.90
146_P151_S0.6310.90
323_N346_E0.6310.90
85_D128_H0.6300.89
34_V71_R0.6300.89
199_G202_I0.6300.89
45_I72_L0.6270.89
45_I75_V0.6260.89
348_F354_N0.6260.89
182_Y229_I0.6250.89
48_S184_A0.6240.89
346_E352_E0.6230.89
24_K27_Y0.6220.89
334_L337_I0.6210.89
72_L77_I0.6210.89
7_I45_I0.6180.89
309_Y312_I0.6170.89
333_G339_I0.6160.88
73_K102_S0.6130.88
73_K105_D0.6130.88
13_G23_E0.6120.88
63_V67_K0.6120.88
16_Q213_E0.6110.88
45_I77_I0.6110.88
354_N357_L0.6100.88
99_N102_S0.6090.88
128_H158_G0.6080.88
127_P155_L0.6050.88
4_I152_I0.6040.87
44_V229_I0.6040.87
255_T286_V0.6040.87
22_R207_S0.6030.87
107_I110_L0.6030.87
201_V238_L0.6020.87
22_R26_I0.6010.87
151_S157_Q0.6000.87
33_L42_V0.5990.87
169_W173_L0.5990.87
8_S184_A0.5980.87
45_I68_I0.5970.87
166_D170_Q0.5960.87
257_N261_D0.5930.86
147_K179_G0.5920.86
227_Y230_D0.5920.86
341_Y344_K0.5900.86
258_I262_I0.5890.86
13_G211_M0.5880.86
235_L238_L0.5880.86
85_D156_H0.5860.86
339_I344_K0.5860.86
7_I226_A0.5850.86
315_D318_T0.5840.86
347_K361_K0.5840.86
152_I231_F0.5840.86
162_I192_W0.5790.85
88_T158_G0.5790.85
78_P105_D0.5780.85
304_N307_A0.5770.85
286_V300_L0.5760.85
324_L327_T0.5760.85
328_L331_D0.5760.85
321_V324_L0.5760.85
101_L105_D0.5750.85
115_P120_G0.5740.85
330_R341_Y0.5730.85
355_L359_M0.5720.84
207_S212_R0.5710.84
11_H187_H0.5710.84
185_L204_I0.5700.84
335_D356_I0.5660.84
246_R306_V0.5650.84
225_G243_I0.5640.84
350_E360_I0.5630.84
108_K112_Y0.5630.84
308_L311_R0.5620.83
166_D173_L0.5620.83
352_E358_Q0.5610.83
110_L113_E0.5600.83
47_H81_S0.5600.83
323_N326_Y0.5590.83
201_V236_P0.5580.83
23_E64_M0.5570.83
336_K342_L0.5570.83
11_H50_D0.5560.83
279_K305_D0.5560.83
334_L344_K0.5540.83
335_D357_L0.5540.83
30_F64_M0.5540.83
39_K361_K0.5530.82
73_K103_E0.5530.82
312_I315_D0.5520.82
34_V37_A0.5450.82
327_T340_E0.5430.81
347_K354_N0.5430.81
68_I72_L0.5420.81
31_S64_M0.5410.81
131_T158_G0.5410.81
101_L107_I0.5390.81
306_V312_I0.5390.81
357_L360_I0.5370.81
350_E355_L0.5370.81
323_N327_T0.5350.80
22_R248_Q0.5350.80
348_F351_D0.5340.80
47_H51_L0.5330.80
85_D187_H0.5330.80
53_D92_K0.5320.80
232_S237_I0.5310.80
313_Y316_E0.5300.80
351_D356_I0.5300.80
331_D336_K0.5290.80
338_I342_L0.5280.80
20_V308_L0.5270.79
105_D109_I0.5270.79
164_P168_S0.5270.79
307_A312_I0.5270.79
347_K360_I0.5250.79
56_S66_I0.5240.79
330_R336_K0.5220.79
193_R238_L0.5220.79
209_D245_V0.5220.79
313_Y317_T0.5200.78
338_I341_Y0.5200.78
156_H189_H0.5190.78
2_V121_I0.5190.78
350_E357_L0.5190.78
93_G110_L0.5160.78
97_P100_I0.5140.78
88_T92_K0.5140.78
25_D207_S0.5130.78
253_I258_I0.5130.78
172_E175_S0.5120.77
13_G58_T0.5120.77
29_I32_Q0.5110.77
315_D319_Q0.5100.77
44_V78_P0.5090.77
112_Y134_K0.5090.77
341_Y346_E0.5070.77
25_D245_V0.5070.77
125_G155_L0.5070.77
158_G188_I0.5060.77
332_K342_L0.5060.77
166_D169_W0.5060.77
314_K317_T0.5060.77
14_K207_S0.5050.76
326_Y329_P0.5050.76
308_L312_I0.5050.76
146_P350_E0.5050.76
12_L27_Y0.5040.76
27_Y61_A0.5040.76
10_T33_L0.5040.76
329_P340_E0.5040.76
26_I207_S0.5010.76
57_P88_T0.5000.76
336_K340_E0.5000.76
305_D309_Y0.5000.76
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
4ltyC 1 0.7769 100 0.399 Contact Map
3thoB 2 0.8793 100 0.408 Contact Map
1ii7A 2 0.7848 100 0.418 Contact Map
3av0A 1 0.9265 100 0.437 Contact Map
4nzvA 1 0.7585 100 0.454 Contact Map
4ykeA 2 0.7953 100 0.458 Contact Map
3t1iA 2 0.8478 100 0.482 Contact Map
4fbwA 2 0.7874 100 0.487 Contact Map
4fbkA 2 0.7979 100 0.492 Contact Map
2yvtA 1 0.5459 99.9 0.703 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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